Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 93 of 378
Found at i:25175226 original size:39 final size:39
Alignment explanation
Indices: 25175183--25175379 Score: 202
Period size: 39 Copynumber: 5.1 Consensus size: 39
25175173 AATAGAAATA
*
25175183 CGGTGATTATTTGGGCTAAGTGCCTAGCAGACTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * * *
25175222 CGGTGATTATTCAGACTAAGTGCATAGCA-AGCTTTTTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGA-CTTTGTGC
* *
25175261 CGGTGATTATTCAGGCTAAGTGTCC-AGCAGGA-TCTGTGC
1 CGGTGATTATTCGGGCTAAGTG-CCTAGCA-GACTTTGTGC
* * *
25175300 TGGTGATTATTTGGGCTAAGTGCCTAGCAGGCTTTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
* * ** * *
25175339 CGGTGACTATTCGGGTTTTGTGCCTAGCAGCCTGTGTGC
1 CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
25175378 CG
1 CG
25175380 ATGTATTGGA
Statistics
Matches: 130, Mismatches: 22, Indels: 12
0.79 0.13 0.07
Matches are distributed among these distances:
38 4 0.03
39 124 0.95
40 1 0.01
41 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.32
Consensus pattern (39 bp):
CGGTGATTATTCGGGCTAAGTGCCTAGCAGACTTTGTGC
Found at i:25176535 original size:27 final size:27
Alignment explanation
Indices: 25176505--25176558 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25176495 ATATATAATT
25176505 ATTA-TAAAATAATTAAATTCTACTTAA
1 ATTATTAAAAT-ATTAAATTCTACTTAA
* *
25176532 ATTATTAAAATGTTAAATTTTACTTAA
1 ATTATTAAAATATTAAATTCTACTTAA
25176559 CTTGATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTCTACTTAA
Found at i:25188116 original size:40 final size:40
Alignment explanation
Indices: 25188071--25188200 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
25188061 CGGAATATAA
25188071 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
25188111 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25188151 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25188191 CCGGATATAA
1 CCGGATATAA
25188201 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25188229 original size:80 final size:80
Alignment explanation
Indices: 25188087--25188236 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
25188077 ATAACCACGT
* * *
25188087 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTCCGGGGCTTAGCC
25188152 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
25188167 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAATGTCTCCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAATGCCTCCGGGGCTTAGC
25188231 CCGGAT
65 CCGGAT
25188237 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTCCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:25198986 original size:39 final size:40
Alignment explanation
Indices: 25198932--25199010 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
25198922 ACAAAAACAC
25198932 AATTGAAGTTCGTCAGGAATCATCACACTATCGCAGAGTA
1 AATTGAAGTTCGTCAGGAATCATCACACTATCGCAGAGTA
*
25198972 AATTTAAGTT-GTCAGGAATCATCACACTATCGCAGAGTA
1 AATTGAAGTTCGTCAGGAATCATCACACTATCGCAGAGTA
25199011 TATATGGCAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 29 0.76
40 9 0.24
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (40 bp):
AATTGAAGTTCGTCAGGAATCATCACACTATCGCAGAGTA
Found at i:25202897 original size:13 final size:13
Alignment explanation
Indices: 25202879--25202904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25202869 CATGTTTCCA
25202879 AAAACCATTTGTT
1 AAAACCATTTGTT
25202892 AAAACCATTTGTT
1 AAAACCATTTGTT
25202905 TGTATAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAACCATTTGTT
Found at i:25212830 original size:31 final size:31
Alignment explanation
Indices: 25212795--25212858 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
25212785 CTTTTTCATA
25212795 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
25212826 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
25212857 TT
1 TT
25212859 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:25212954 original size:42 final size:42
Alignment explanation
Indices: 25212882--25212965 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
25212872 TGGCCCATAG
**
25212882 GCCCATTTCAATATCACATATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
* *
25212924 GCCCATTTCAATATCACATGA-AATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACAT-ATAATACCAATGAAAGAATGCAA
25212966 ACCTATTTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 36 0.97
43 1 0.03
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
GCCCATTTCAATATCACATATAATACCAATGAAAGAATGCAA
Found at i:25213145 original size:23 final size:23
Alignment explanation
Indices: 25213115--25213257 Score: 196
Period size: 23 Copynumber: 6.1 Consensus size: 23
25213105 CCTTGCCTCT
* *
25213115 TTTAATAACTGGGGCAAAAACCC
1 TTTAATAACTGGGGCATAAGCCC
* *
25213138 TTTAATAACTGGGGCGTATGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
25213161 TTTTGATCACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
25213185 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
25213208 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
25213232 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
25213255 TTT
1 TTT
25213258 TGCACTTCCT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 64 0.62
24 40 0.38
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:25213177 original size:47 final size:47
Alignment explanation
Indices: 25213113--25213259 Score: 231
Period size: 47 Copynumber: 3.1 Consensus size: 47
25213103 GGCCTTGCCT
* * * * *
25213113 CTTTTAATAACTGGGGCAAAAACCCTTTAATAACTGGGGCGTATGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
25213160 CTTTTGATCACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
25213207 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
25213254 CTTTTG
1 CTTTTG
25213260 CACTTCCTCC
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:25213332 original size:20 final size:20
Alignment explanation
Indices: 25213304--25213374 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
25213294 GCATTTATGA
*
25213304 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
25213324 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
* *
25213344 ACATGTCATGTACATATCAT
1 ACATATCATGTGCATATCAT
25213364 ACATATCATGT
1 ACATATCATGT
25213375 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:25213357 original size:11 final size:11
Alignment explanation
Indices: 25213304--25213374 Score: 64
Period size: 9 Copynumber: 7.0 Consensus size: 11
25213294 GCATTTATGA
*
25213304 ACATCTCATGT
1 ACATATCATGT
*
25213315 GCATATCA--T
1 ACATATCATGT
25213324 ACATATCATGT
1 ACATATCATGT
*
25213335 GCATATCA--T
1 ACATATCATGT
*
25213344 ACATGTCATGT
1 ACATATCATGT
25213355 ACATATCA--T
1 ACATATCATGT
25213364 ACATATCATGT
1 ACATATCATGT
25213375 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
9 24 0.51
11 23 0.49
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (11 bp):
ACATATCATGT
Found at i:25213439 original size:25 final size:25
Alignment explanation
Indices: 25213411--25213458 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
25213401 ATATATAAAC
* *
25213411 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
25213436 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
25213459 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:25215603 original size:20 final size:22
Alignment explanation
Indices: 25215565--25215604 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
25215555 TTCAAATACG
*
25215565 ATAATATATATATATTTTCCTA
1 ATAATATATATATAATTTCCTA
25215587 ATAATA-AT-TATAATTTCC
1 ATAATATATATATAATTTCC
25215605 ATAAATCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAATATATATATAATTTCCTA
Found at i:25224109 original size:14 final size:14
Alignment explanation
Indices: 25224090--25224116 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25224080 ATACATACAC
25224090 AATTAAACCAACCA
1 AATTAAACCAACCA
25224104 AATTAAACCAACC
1 AATTAAACCAACC
25224117 CTCATGGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
AATTAAACCAACCA
Found at i:25224516 original size:70 final size:70
Alignment explanation
Indices: 25224403--25224617 Score: 421
Period size: 70 Copynumber: 3.1 Consensus size: 70
25224393 ACCATATATG
25224403 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
1 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
25224468 TCTTT
66 TCTTT
*
25224473 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCATATTT
1 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
25224538 TCTTT
66 TCTTT
25224543 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
1 CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
25224608 TCTTT
66 TCTTT
25224613 CACAA
1 CACAA
25224618 AATATATAAC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 143 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.31
Consensus pattern (70 bp):
CACAACTTAAGCAAATAATGCATAACATAACATAGTTAACATTAAATCATCAACTTACCACATTT
TCTTT
Found at i:25225623 original size:18 final size:18
Alignment explanation
Indices: 25225596--25225632 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25225586 AATTTCAATG
25225596 ATCACAAAAACATA-AAA
1 ATCACAAAAACATATAAA
25225613 ATCATCAAAAACATATAAA
1 ATCA-CAAAAACATATAAA
25225632 A
1 A
25225633 AAATACTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 10 0.56
19 4 0.22
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (18 bp):
ATCACAAAAACATATAAA
Found at i:25232445 original size:26 final size:24
Alignment explanation
Indices: 25232405--25232464 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
25232395 TTATTTCATT
* * *
25232405 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
25232429 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
25232455 AAATAAATAT
1 AAATAAATAT
25232465 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:25232476 original size:22 final size:22
Alignment explanation
Indices: 25232435--25232493 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
25232425 ATAATAAATC
* *
25232435 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
25232455 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
25232477 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
25232494 TTTTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:25232570 original size:15 final size:16
Alignment explanation
Indices: 25232540--25232572 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
25232530 AAATAGTTAT
25232540 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
25232557 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
25232572 A
1 A
25232573 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:25247250 original size:28 final size:28
Alignment explanation
Indices: 25247185--25247285 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25247175 ATAGTGAATC
*
25247185 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
25247214 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25247242 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
25247272 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25247286 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25255160 original size:29 final size:27
Alignment explanation
Indices: 25255127--25255197 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
25255117 ATAGTGAATC
*
25255127 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTA-A--TAATCAAACT
25255156 CGCACACTTAGTGCTAATAATCAAACT
1 CGCACACTTAGTGCTAATAATCAAACT
25255183 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
25255198 GTACAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 4 0.10
27 19 0.47
28 1 0.03
29 16 0.40
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTAATAATCAAACT
Found at i:25258522 original size:30 final size:29
Alignment explanation
Indices: 25258428--25258529 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
25258418 TATAGTGAAT
* * *
25258428 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
25258457 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
25258485 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
25258515 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25258530 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:25266412 original size:30 final size:29
Alignment explanation
Indices: 25266318--25266419 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
25266308 TATAGTGAAT
* * *
25266318 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
25266347 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
25266375 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
25266405 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
25266420 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:25275597 original size:28 final size:28
Alignment explanation
Indices: 25275532--25275632 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25275522 ATAGTGAATC
*
25275532 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
25275561 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25275589 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
25275619 CGCACACTTAGTGC
1 CGCACACTTAGTGC
25275633 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25278196 original size:40 final size:40
Alignment explanation
Indices: 25278151--25278317 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
25278141 CGGAATATAA
25278151 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
25278191 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
25278231 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
25278271 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
25278310 CCGGATAT
1 CCGGATAT
25278318 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25278301 original size:80 final size:79
Alignment explanation
Indices: 25278167--25278317 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
25278157 ATAATCACGT
*
25278167 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
25278232 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
25278247 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
25278310 CCGGATAT
64 CCGGATAT
25278318 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:25279571 original size:58 final size:56
Alignment explanation
Indices: 25279503--25279615 Score: 149
Period size: 58 Copynumber: 2.0 Consensus size: 56
25279493 ATCCTCCCCT
25279503 TTTCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTTTCTTTTC
1 TTTCCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTTTTCTTTTC
***
25279561 TTTCCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTCTTTT
1 TTTCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTCTTTT
25279616 TTTTTTTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
56 13 0.26
58 33 0.66
59 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (56 bp):
TTTCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTCTTTTC
Found at i:25290766 original size:41 final size:41
Alignment explanation
Indices: 25290678--25290829 Score: 175
Period size: 41 Copynumber: 3.7 Consensus size: 41
25290668 ATGATAAATC
* * *
25290678 AGCTATATGTGGCACTTAGTGTGC-A-ATTCAACATAGCTTT
1 AGCTATATATGGCACTTAGTGTGCGAGA-TCGAGATAGCTTT
*
25290718 GGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
1 AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
* *
25290759 AGCTATATATGGCACCTAGTGTACGAGATCGAGATAGC-TT
1 AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
* *
25290799 CGACTATATATATGGCACTTAGTGTGTGAGA
1 AG-C--TATATATGGCACTTAGTGTGCGAGA
25290830 GAGATTATGC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
40 25 0.26
41 48 0.50
42 1 0.01
43 22 0.23
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (41 bp):
AGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTT
Found at i:25301757 original size:41 final size:41
Alignment explanation
Indices: 25301666--25301814 Score: 192
Period size: 41 Copynumber: 3.6 Consensus size: 41
25301656 TGATGATAAA
* * * *
25301666 TCAGCTATATGTGGCACTTAGTGTGCGA-TTCAACATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
25301706 TCGGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
* * *
25301747 TCAGCTATATATGGCACTTAGTATGCAAGATTGAGATAGCT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
*
25301788 TCGGCTATATATATGGCACTTAGTGTG
1 TCAGC--TATATATGGCACTTAGTGTG
25301815 AAATTTGAGA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
40 26 0.27
41 50 0.53
43 19 0.20
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (41 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCT
Found at i:25302126 original size:56 final size:56
Alignment explanation
Indices: 25302040--25302152 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
25302030 ATGAATGATG
25302040 TATTTGTGATTAGTTAAGTTTATATCATATGAGCTTACTAAGCTATAAAGCTTACT
1 TATTTGTGATTAGTTAAGTTTATATCATATGAGCTTACTAAGCTATAAAGCTTACT
25302096 TATTTGTGATTAGTTAAGTTTATATCATATGAGCTTACTAAGCTATAAAGCTTACT
1 TATTTGTGATTAGTTAAGTTTATATCATATGAGCTTACTAAGCTATAAAGCTTACT
25302152 T
1 T
25302153 TGTTTATTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (56 bp):
TATTTGTGATTAGTTAAGTTTATATCATATGAGCTTACTAAGCTATAAAGCTTACT
Found at i:25304066 original size:25 final size:25
Alignment explanation
Indices: 25304036--25304083 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25304026 TTATAATATG
**
25304036 AAAATGACTGTTTTACCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
*
25304061 AAAATGACCATTTTACCTCTAGG
1 AAAATGACCATTTTACCCCTAGG
25304084 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:25304288 original size:25 final size:25
Alignment explanation
Indices: 25304216--25304293 Score: 104
Period size: 26 Copynumber: 3.1 Consensus size: 25
25304206 GAGGAAGTGC
* * *
25304216 AAAAGGGC-TATGCCCCAGTTACCG
1 AAAAGGGCTTTTGCCCCAGTTATCA
25304240 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAG-TTATCA
*
25304266 AAAAGGGCTTTTGCCCCAGTTATTA
1 AAAAGGGCTTTTGCCCCAGTTATCA
25304291 AAA
1 AAA
25304294 GAGACTAGGC
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
24 8 0.17
25 17 0.35
26 23 0.48
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTATCA
Found at i:25304551 original size:31 final size:31
Alignment explanation
Indices: 25304510--25304589 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
25304500 TACAGTAAAG
*
25304510 GCTTCGGCCCAGTGATATGAATAATGAAAAA
1 GCTTCAGCCCAGTGATATGAATAATGAAAAA
* *
25304541 GCTTCAGCCCAGTGATATGAATAATGTAAAG
1 GCTTCAGCCCAGTGATATGAATAATGAAAAA
25304572 GCTTCAGCCCAGT-ATATG
1 GCTTCAGCCCAGTGATATG
25304590 TTAAGACTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.11
31 41 0.89
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (31 bp):
GCTTCAGCCCAGTGATATGAATAATGAAAAA
Found at i:25306380 original size:48 final size:48
Alignment explanation
Indices: 25306328--25306439 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 48
25306318 CATGTTAACC
* ** * * *
25306328 CGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATA
1 CGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATA
* * * *
25306376 CGCACACATAGTGCCATACAAATTCGCACATATAGTGCCATTCAAATT
1 CGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATA
25306424 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
25306440 AAATCATTTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (48 bp):
CGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATA
Found at i:25306384 original size:24 final size:24
Alignment explanation
Indices: 25306348--25306439 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
25306338 GTGCCTTAGT
* * * * *
25306348 AATTCACATACATATTGACATTCC
1 AATTCGCACACATAGTGCCATTCA
* *
25306372 AATACGCACACATAGTGCCATACA
1 AATTCGCACACATAGTGCCATTCA
*
25306396 AATTCGCACATATAGTGCCATTCA
1 AATTCGCACACATAGTGCCATTCA
25306420 AATTCGCACACATAGTGCCA
1 AATTCGCACACATAGTGCCA
25306440 AAATCATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.25
Consensus pattern (24 bp):
AATTCGCACACATAGTGCCATTCA
Found at i:25307634 original size:17 final size:17
Alignment explanation
Indices: 25307612--25307645 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25307602 CCCCACTTAA
*
25307612 TATATTATAACTTATTT
1 TATATTATAACATATTT
25307629 TATATTATAACATATTT
1 TATATTATAACATATTT
25307646 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:25314394 original size:17 final size:17
Alignment explanation
Indices: 25314372--25314405 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25314362 CCCCACTTAA
*
25314372 TATATTATAACTTATTT
1 TATATTATAACATATTT
25314389 TATATTATAACATATTT
1 TATATTATAACATATTT
25314406 CAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:25320366 original size:7 final size:7
Alignment explanation
Indices: 25320271--25320369 Score: 72
Period size: 7 Copynumber: 13.9 Consensus size: 7
25320261 AACTCGAAAT
*
25320271 CATAAAA
1 CATAAAC
25320278 CATAAAC
1 CATAAAC
* *
25320285 CCTTAAC
1 CATAAAC
*
25320292 CATTAACC
1 CA-TAAAC
*
25320300 CCTAAAC
1 CATAAAC
*
25320307 CTTAAAC
1 CATAAAC
** *
25320314 CCCAACC
1 CATAAAC
*
25320321 CTTAAAC
1 CATAAAC
25320328 CATAAAC
1 CATAAAC
25320335 CATAAAC
1 CATAAAC
*
25320342 CATAATC
1 CATAAAC
25320349 CATAAACC
1 CATAAA-C
*
25320357 CATAATC
1 CATAAAC
25320364 CATAAA
1 CATAAA
25320370 TCTTAAAATA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
7 60 0.86
8 10 0.14
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CATAAAC
Found at i:25320376 original size:22 final size:21
Alignment explanation
Indices: 25320327--25320368 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
25320317 AACCCTTAAA
25320327 CCATAAACCATAAACCATAAT
1 CCATAAACCATAAACCATAAT
*
25320348 CCATAAACCCATAATCCATAA
1 CCATAAA-CCATAAACCATAA
25320369 ATCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
CCATAAACCATAAACCATAAT
Found at i:25320776 original size:40 final size:40
Alignment explanation
Indices: 25320631--25320851 Score: 171
Period size: 40 Copynumber: 5.6 Consensus size: 40
25320621 TTTTCAACAA
* **
25320631 TTTTT-AAAAAGCACC-CTAATGCTCAATCTATAGCGGCA
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGTG
*** * * * *
25320669 TTTTTCAAAAAGTGTCGCTAAAGGTCGAGCTATAGCGGCG
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGTG
* ** * *
25320709 TTTTT-TAAAAGTGCCACTAATGCTCGATCTATAGCGATG
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGTG
* * * * *
25320748 TTTTTCAAAAAGCACCACTAATGCTCGATCTGTAACGATA
1 TTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGTG
* * *
25320788 TTTTTCTAAAAGTGA-TGCTAATGCTCGATCTATAGCGGTG
1 TTTTTCAAAAAG-CACCGCTAATGCTCGATCTATAGCGGTG
** *
25320828 TTTTTCTGAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCACCGCTAATGC
25320852 CACTAAAGCT
Statistics
Matches: 144, Mismatches: 34, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
38 5 0.03
39 38 0.26
40 100 0.69
41 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (40 bp):
TTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGTG
Found at i:25320923 original size:183 final size:182
Alignment explanation
Indices: 25320703--25321033 Score: 420
Period size: 183 Copynumber: 1.8 Consensus size: 182
25320693 TCGAGCTATA
* *
25320703 GCGGCGTTTTTTAAAAGTGCCACTAATGCTCGATCTATAGC-GATG-TTTTTCAAAAA-GCACCA
1 GCGGCGTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCAG-TGCTTTTTCAAAAATG--CCA
* * * * *
25320765 CTAATGCTCGATCTGTAACGATATTTTTCTAAAAGTGAT-GCTAATGCTCGATCTATAGCGGTGT
63 CTAATGCTCGATCTATAACGACATTTTT-TAAAAGCG-TCGCTAAAGCTCGAGCTATAGCGGTGT
* *
25320829 TTTTCT-GAAAGCGCCGCTAATGCCACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTT
126 TTTT-TAAAAAGCGCCACTAATGCCACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTT
* * * *
25320886 GCGGCGTTTTTAAAAAGCGCCGCTAATGCTGGATCTATAGCAGTGCTTTTTGAAAAATGCCGCTA
1 GCGGCGTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCAGTGCTTTTTCAAAAATGCCACTA
* * * *
25320951 ATGCTCGATCTATAGCGGCATTTTTTGAAAGCGTCGCTAAAGGTCGAGCTATAGCGGTGTTTTTT
66 ATGCTCGATCTATAACGACATTTTTTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTGTTTTTT
25321016 AAAAAGCGCCACTAATGC
131 AAAAAGCGCCACTAATGC
25321034 TCGATCTATA
Statistics
Matches: 126, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
181 2 0.02
182 47 0.37
183 65 0.52
184 11 0.09
185 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (182 bp):
GCGGCGTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCAGTGCTTTTTCAAAAATGCCACTA
ATGCTCGATCTATAACGACATTTTTTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTGTTTTTT
AAAAAGCGCCACTAATGCCACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTT
Found at i:25320936 original size:40 final size:38
Alignment explanation
Indices: 25320891--25321153 Score: 215
Period size: 40 Copynumber: 6.6 Consensus size: 38
25320881 TTTTTGCGGC
*
25320891 GTTTTTAAAAAGCGCCGCTAATGCTGGATCTATAGCAGT
1 GTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC-GT
*
25320930 GCTTTTTGAAAAA-TGCCGCTAATGCTCGATCTATAGCG-
1 G-TTTTT-AAAAAGCGCCGCTAATGCTCGATCTATAGCGT
** * * * *
25320968 GCATTTTTTGAAAGCGTCGCTAAAGGTCGAGCTATAGCGGT
1 G--TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGC-GT
* *
25321009 GTTTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGAC
1 G-TTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCG-T
* * * *
25321049 GTTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTAACGAT
1 GTTTTT-AAAAAGCGCCGCTAATGCTCGATCTATAGCG-T
* * * *
25321089 ATTTTTCTAAAAGCGCTGCTAATGCTCGACCTATAGCGGT
1 GTTTTT-AAAAAGCGCCGCTAATGCTCGATCTATAGC-GT
* *
25321129 GTTTTTCTAAAAGCGTCGCTAATGC
1 GTTTTT-AAAAAGCGCCGCTAATGC
25321154 CACTAAAGCT
Statistics
Matches: 179, Mismatches: 36, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
38 4 0.02
39 32 0.18
40 136 0.76
41 7 0.04
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (38 bp):
GTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCGT
Found at i:25321014 original size:262 final size:261
Alignment explanation
Indices: 25320530--25321113 Score: 639
Period size: 262 Copynumber: 2.2 Consensus size: 261
25320520 TTTTGTAGCG
* * * * * *
25320530 TTTTTCAGAGAGCGCCGCTAATGCTCGATCTATAATGGTATTTTTCTAAAAGCGCCACTAATGCT
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGC-
* * ** *
25320595 CGATCTATAG--T--GGTG--GTGCTT-AATTTTTTTCAACAATTTTTAAAAAGCACCCTAATGC
65 C-A-CTAAAGCTTAAGGTGTTGTGCTTAAATTTTTTGCGGC-GTTTTTAAAAAGCACCCTAATGC
* * *
25320653 TCAATCTATAGCGGCATTTTTCAAAAAGTGTCGCTAAAGGTCGAGCTATAGCGGCGTTTTTTAAA
127 TCAATCTATAGCGGCATTTTTCAAAAAGTGCCGCTAAAGCTCGAGCTATAGCGGCATTTTTTAAA
* * * *
25320718 AGTGCCACTAATGCTCGATCTATAGCGATGTTTTTCAAAAAGCACCACTAATGCTCGATCTGTAA
192 AGCGCCACTAAAGCTCGAGCTATAGCGATGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAA
*
25320783 CGATA
257 CGACA
* * * * * *
25320788 TTTTTCTAAAAGTGAT-GCTAATGCTCGATCTATAGCGGTGTTTTTCTGAAAGCGCCGCTAATGC
1 TTTTTCAAAAAGCG-TCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGC
* *
25320852 CACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTTGCGGCGTTTTTAAAAAGCGCCGCTAATGCTG
65 CACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTTGCGGCGTTTTTAAAAAGCACC-CTAATGCTC
* * * * *
25320917 GATCTATAGCAGTGC-TTTTTGAAAAA-TGCCGCTAATGCTCGATCTATAGCGGCATTTTTTGAA
129 AATCTATAGC-G-GCATTTTTCAAAAAGTGCCGCTAAAGCTCGAGCTATAGCGGCATTTTTTAAA
* * * * * * *
25320980 AGCGTCGCTAAAGGTCGAGCTATAGCGGTGTTTTTTAAAAAGCGCCACTAATGCTCGATCTATAG
192 AGCGCCACTAAAGCTCGAGCTATAGCGATGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAA
*
25321045 CGACG
257 CGACA
* * *
25321050 TTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTAACGATATTTTTCTAAAAGCGCTGCTAATGC
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGC
25321114 TCGACCTATA
Statistics
Matches: 267, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
255 5 0.02
256 1 0.00
257 2 0.01
258 53 0.20
259 4 0.01
261 21 0.08
262 168 0.63
263 11 0.04
264 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (261 bp):
TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAACGATATTTTTCTAAAAGCGCCGCTAATGCC
ACTAAAGCTTAAGGTGTTGTGCTTAAATTTTTTGCGGCGTTTTTAAAAAGCACCCTAATGCTCAA
TCTATAGCGGCATTTTTCAAAAAGTGCCGCTAAAGCTCGAGCTATAGCGGCATTTTTTAAAAGCG
CCACTAAAGCTCGAGCTATAGCGATGTTTTTCAAAAAGCACCACTAATGCTCGATCTATAACGAC
A
Found at i:25321031 original size:79 final size:80
Alignment explanation
Indices: 25320886--25321150 Score: 268
Period size: 80 Copynumber: 3.3 Consensus size: 80
25320876 TAAATTTTTT
* * * * * * * *
25320886 GCGGCGTTTTT-AAAAAGCGCCGCTAATGCTGGATCTATAGCAGTGCTTTTTGAAAAA-TGCCGC
1 GCGGCGTTTTTCTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTG-TTTTTTAAAAAGCGCCGC
25320949 TAATGCTCGATCTATA
65 TAATGCTCGATCTATA
* * * *
25320965 GCGGCATTTTT-TGAAAGCGTCGCTAAAGGTCGAGCTATAGCGGTGTTTTTTAAAAAGCGCCACT
1 GCGGCGTTTTTCTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTGTTTTTTAAAAAGCGCCGCT
25321029 AATGCTCGATCTATA
66 AATGCTCGATCTATA
* * ** * * * * * *
25321044 GCGACGTTTTTCAAAAAGCGTCGCTAGTGCTCGATCTGTAACGATATTTTTCT-AAAAGCGCTGC
1 GCGGCGTTTTTCTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTGTTTTT-TAAAAAGCGCCGC
*
25321108 TAATGCTCGACCTATA
65 TAATGCTCGATCTATA
*
25321124 GCGGTGTTTTTCTAAAAGCGTCGCTAA
1 GCGGCGTTTTTCTAAAAGCGTCGCTAA
25321151 TGCCACTAAA
Statistics
Matches: 152, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
78 10 0.07
79 65 0.43
80 76 0.50
81 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (80 bp):
GCGGCGTTTTTCTAAAAGCGTCGCTAAAGCTCGAGCTATAGCGGTGTTTTTTAAAAAGCGCCGCT
AATGCTCGATCTATA
Found at i:25321253 original size:22 final size:23
Alignment explanation
Indices: 25321221--25321268 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
25321211 AAAAAACGCA
* *
25321221 GCTAATGCTCGACCTCTAGC-GC
1 GCTAATACTCGACCTATAGCGGC
*
25321243 GCTAATACTCGATCTATAGCGGC
1 GCTAATACTCGACCTATAGCGGC
25321266 GCT
1 GCT
25321269 TTTTGAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (23 bp):
GCTAATACTCGACCTATAGCGGC
Found at i:25327948 original size:31 final size:31
Alignment explanation
Indices: 25327912--25327986 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
25327902 ATTAAAAGCC
25327912 CAATGACTTAAATTAAAACTTT-TAAATAGTT
1 CAATGACTTAAATTAAAA-TTTCTAAATAGTT
** *
25327943 CAATGACTTAAACGAAAATTTCTGAATAGTT
1 CAATGACTTAAATTAAAATTTCTAAATAGTT
*
25327974 CAGTGA-TTAAATT
1 CAATGACTTAAATT
25327987 GTAATGTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 8 0.22
31 29 0.78
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
CAATGACTTAAATTAAAATTTCTAAATAGTT
Found at i:25328523 original size:21 final size:21
Alignment explanation
Indices: 25328505--25328545 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25328495 AGGGTTAGAG
25328505 CTTTGCTAAAATAATTTAGGT
1 CTTTGCTAAAATAATTTAGGT
* *
25328526 TTTTGTTAAAATAATTTAGG
1 CTTTGCTAAAATAATTTAGG
25328546 ATTAAGGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.46
Consensus pattern (21 bp):
CTTTGCTAAAATAATTTAGGT
Found at i:25329102 original size:21 final size:22
Alignment explanation
Indices: 25329056--25329102 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
25329046 AAACCTTAAC
*
25329056 CCTAAATTCTTTTAACAAAAAT
1 CCTAAATTATTTTAACAAAAAT
*
25329078 -CTAAATTATTTTAGC-AAAAT
1 CCTAAATTATTTTAACAAAAAT
25329098 CCTAA
1 CCTAA
25329103 CCTTAAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (22 bp):
CCTAAATTATTTTAACAAAAAT
Found at i:25329222 original size:27 final size:27
Alignment explanation
Indices: 25329191--25329248 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
25329181 GTGTGCCACT
*
25329191 TATCAGATAAGCACCACCAATGCCGCC
1 TATCAGATAAGCACAACCAATGCCGCC
* * *
25329218 TATCAGATAGGCACAACTAGTGCCGCC
1 TATCAGATAAGCACAACCAATGCCGCC
25329245 TATC
1 TATC
25329249 TGACACCCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (27 bp):
TATCAGATAAGCACAACCAATGCCGCC
Found at i:25334355 original size:40 final size:40
Alignment explanation
Indices: 25334270--25334420 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
25334260 AATTGAATGA
* * * *
25334270 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
25334310 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
25334351 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
25334390 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
25334421 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:25334434 original size:40 final size:40
Alignment explanation
Indices: 25334307--25334436 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
25334297 ATGCTGGAAA
* * *
25334307 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
25334347 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
25334387 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
25334427 TTATATCCGG
1 TTATATCCGG
25334437 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:25334435 original size:80 final size:80
Alignment explanation
Indices: 25334269--25334436 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
25334259 AAATTGAATG
* *
25334269 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
25334334 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
25334349 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
25334412 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
25334429 ATATCCGG
1 ATATCCGG
25334437 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:25339398 original size:28 final size:28
Alignment explanation
Indices: 25339365--25339433 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
25339355 GCGTAGATCA
25339365 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
25339393 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
25339421 CGATA-TACCCCTA
1 CGAAATTACCCCTA
25339434 GGTTTTAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 8 0.21
28 30 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:25343144 original size:27 final size:27
Alignment explanation
Indices: 25343113--25343181 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25343103 AGCGTAGATC
25343113 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
25343140 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
25343167 ACCGATA-TACCCCTA
1 A-CGAAATTACCCCTA
25343182 GGTTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:25346890 original size:27 final size:27
Alignment explanation
Indices: 25346859--25346927 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
25346849 AGCGTAGATC
25346859 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
25346886 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
25346913 ACCGATA-TACCCCTA
1 A-CGAAATTACCCCTA
25346928 GGTTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:25352007 original size:7 final size:7
Alignment explanation
Indices: 25351997--25352023 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25351987 ATCCAATATC
25351997 CACATTT
1 CACATTT
25352004 CACATTT
1 CACATTT
25352011 CACATTT
1 CACATTT
25352018 CACATT
1 CACATT
25352024 AATCACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (7 bp):
CACATTT
Found at i:25352940 original size:19 final size:20
Alignment explanation
Indices: 25352904--25352941 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
25352894 AATATAATTT
*
25352904 ATTATTTTATACATATGTAC
1 ATTATTTTATACACATGTAC
25352924 ATTATTTT-TACACATGTA
1 ATTATTTTATACACATGTA
25352942 AACAACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTATTTTATACACATGTAC
Found at i:25359597 original size:20 final size:20
Alignment explanation
Indices: 25359572--25359621 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
25359562 CTCTAGTTTT
25359572 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
25359592 GGCAAAGGTAGGATCTCAAG
1 GGCAAAGGTAGGATCTCAAG
* *
25359612 TGCATAGGTA
1 GGCAAAGGTA
25359622 TTGATGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.34, C:0.14, G:0.34, T:0.18
Consensus pattern (20 bp):
GGCAAAGGTAGGATCTCAAG
Found at i:25360086 original size:27 final size:25
Alignment explanation
Indices: 25360056--25360113 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 25
25360046 ATTTACTAAA
25360056 ATACCCTTAAGTCTG-AAAATTACCATT
1 ATACCCTT-AG-CTGCAAAATTACC-TT
*
25360083 ATACCCTTAGGTGCAAAATTACCTT
1 ATACCCTTAGCTGCAAAATTACCTT
25360108 ATACCC
1 ATACCC
25360114 CTATGGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 11 0.38
27 8 0.28
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (25 bp):
ATACCCTTAGCTGCAAAATTACCTT
Found at i:25360258 original size:27 final size:27
Alignment explanation
Indices: 25360220--25360271 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
25360210 GAGGAAGCGT
25360220 TCTGGTGGCTTTGCCACAAATATCTAA
1 TCTGGTGGCTTTGCCACAAATATCTAA
25360247 TCTGGTGGCTTTGCCACAAATATCT
1 TCTGGTGGCTTTGCCACAAATATCT
25360272 GTTTCTAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTTTGCCACAAATATCTAA
Found at i:25365629 original size:29 final size:29
Alignment explanation
Indices: 25365601--25365731 Score: 208
Period size: 29 Copynumber: 4.5 Consensus size: 29
25365591 CCTCCGAGCT
** * * *
25365601 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
25365630 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25365659 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25365688 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25365717 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
25365732 GATCTCGTCA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:25365646 original size:58 final size:58
Alignment explanation
Indices: 25365572--25365723 Score: 162
Period size: 58 Copynumber: 2.6 Consensus size: 58
25365562 TAATTTAAGC
** * * * * *
25365572 CGCACACACAGTGCCATA-CCCTCCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATACCTCC-AGCACGCACACCCAGTGCCATATATTTCCAGCA
* ** **
25365630 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
**
25365688 CGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATATACCTCCAGCACGCACAC
25365724 TTAGTGCCGA
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
58 77 0.96
59 3 0.04
ACGTcount: A:0.25, C:0.36, G:0.15, T:0.24
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:25365675 original size:87 final size:85
Alignment explanation
Indices: 25365544--25365731 Score: 200
Period size: 87 Copynumber: 2.2 Consensus size: 85
25365534 CACTCGATTT
* *
25365544 CGCACACTTAGTGCCACGTAATTTAAGCCGCACACACAGTGCCATA-CCCTCCGAGCTCGCACAC
1 CGCACACTTAGTGCCAC-TAATTTAAGCCGCACACACAGTGCCATATACCTCC-AGCACGCACAC
* * *
25365608 CCAGTGCCGTATTTTTCCAGCT
64 CCAGTGCCATATATTTCCAGCA
* * ** **
25365630 TGCACACTTAGTGCCA-TATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACA
1 CGCACACTTAGTGCCACTA-ATTT-AAGC-CGCACACACAGTGCCATATACCTCCAGCACGCACA
**
25365694 CTTAGTGCCATATATTTCCAGCA
63 CCCAGTGCCATATATTTCCAGCA
25365717 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
25365732 GATCTCGTCA
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
84 2 0.02
85 4 0.05
86 18 0.21
87 57 0.68
88 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (85 bp):
CGCACACTTAGTGCCACTAATTTAAGCCGCACACACAGTGCCATATACCTCCAGCACGCACACCC
AGTGCCATATATTTCCAGCA
Found at i:25373481 original size:29 final size:29
Alignment explanation
Indices: 25373447--25373636 Score: 213
Period size: 29 Copynumber: 6.6 Consensus size: 29
25373437 ACACTCGATT
*
25373447 TCGCACACTTAGTGCCACGTA-ATTT-AAGC
1 TCGCACACTTAGTGCCA--TATATTTCCAGC
** *** *
25373476 TCGCACACACAGTGCCATACCCTTCGAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
** * *
25373505 TCGCACACCCAGTGCCGTATTTTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
25373534 TTGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
25373563 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
25373592 ACGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATATATTTCCAGC
*
25373621 ACGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
25373637 GATCTCGTCA
Statistics
Matches: 141, Mismatches: 18, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
27 2 0.01
28 2 0.01
29 137 0.97
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
TCGCACACTTAGTGCCATATATTTCCAGC
Found at i:25376349 original size:31 final size:31
Alignment explanation
Indices: 25376314--25376396 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
25376304 CTTCCTACAT
* *
25376314 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
* * * *
25376345 TAAAATGCAGCCAAAAACAGCAAATTTAGCA
1 TAAAATCCAACCAAAAACAACAAATATAGCA
*
25376376 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
25376397 TTAATTCTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.59, C:0.19, G:0.06, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAGCA
Found at i:25382256 original size:9 final size:9
Alignment explanation
Indices: 25382242--25382366 Score: 142
Period size: 9 Copynumber: 13.6 Consensus size: 9
25382232 ATGTATTAGT
25382242 TAAGTTATG
1 TAAGTTATG
25382251 TAAGTTGTTATG
1 TAA---GTTATG
*
25382263 TACGTTATG
1 TAAGTTATG
*
25382272 TGAGTTATG
1 TAAGTTATG
*
25382281 TAAATTATG
1 TAAGTTATG
25382290 TAAGTTATG
1 TAAGTTATG
*
25382299 TGAGTTATG
1 TAAGTTATG
*
25382308 TAAGTTATA
1 TAAGTTATG
*
25382317 TGAGTTATG
1 TAAGTTATG
25382326 TAAGTTATG
1 TAAGTTATG
*
25382335 TGAGTTATG
1 TAAGTTATG
25382344 TAAGTTATG
1 TAAGTTATG
* *
25382353 TAATTTATT
1 TAAGTTATG
25382362 TAAGT
1 TAAGT
25382367 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
9 88 0.92
12 8 0.08
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25385147 original size:40 final size:41
Alignment explanation
Indices: 25385092--25385168 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
25385082 AATTAAACTT
* * *
25385092 TTAGTAGCGTTTTT-AAAAAGGCGCCGCTAAAAATAGAGAA
1 TTAGTAGCGTTTTTAAAAAAAGCGACACTAAAAATAGAGAA
*
25385132 TTAGTGGCGTTTTTAAAAAAAGCGACACTAAAAATAG
1 TTAGTAGCGTTTTTAAAAAAAGCGACACTAAAAATAG
25385169 GAAATGTAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 13 0.41
41 19 0.59
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (41 bp):
TTAGTAGCGTTTTTAAAAAAAGCGACACTAAAAATAGAGAA
Found at i:25386350 original size:28 final size:28
Alignment explanation
Indices: 25386304--25386372 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
25386294 TTTAAAACCC
* *
25386304 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
25386331 TAGGGGTAATTTCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
25386359 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
25386373 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:25389483 original size:40 final size:40
Alignment explanation
Indices: 25389407--25389807 Score: 186
Period size: 41 Copynumber: 9.9 Consensus size: 40
25389397 ATTTGGTCCT
** * *
25389407 AAAAACGCCGCTATTGAT-TAGTTTTAGTGGAGTTTTAAC
1 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTAAC
*
25389446 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTACAT
1 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTA-AC
* * * **
25389487 AAAAACGCTGCTATTT-TCCCAGTTTTTACTGGCGTTTGGAC
1 AAAAACGCCGCTATTTCT-CTA-TTTTTAGTGGCGTTTTAAC
* * * **
25389528 AAAAACGCCACTATTTCTATGCTTTTTAGTGGCGTTTGGAC
1 AAAAACGCCGCTATTTCTCT-ATTTTTAGTGGCGTTTTAAC
* * * *
25389569 -AAAACGCCACTATTTCTCTGCTTTTTAGTGGCGTTTTGGAT
1 AAAAACGCCGCTATTTCTCT-ATTTTTAGTGGCGTTTT-AAC
* * ** * * * **
25389610 GAAAACGCCACTATTGAT-AACTTTTAGGGGCGTTTGGGAC
1 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTT-TAAC
* * *
25389650 AAAAACGCAGCTATTTCCCCAGTTTTTAGTGGCG-TTT-AC
1 AAAAACGCCGCTATTTCTCTA-TTTTTAGTGGCGTTTTAAC
* ** ** ** *
25389689 GTGAAAACAACGCTATTGATC-CGTTTTAGTGGCGTTTTAGAT
1 --AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTA-AC
* * ** * * **
25389731 AAAACCACCGCTATTGATATGTTTTTAACGGCGTTTTAGAC
1 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTA-AC
* * * *
25389772 AAAAACGCTGCTATTTCTCTTTTTTTTGCGGCGTTT
1 AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTT
25389808 GTGAGTAAAG
Statistics
Matches: 279, Mismatches: 66, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
39 29 0.10
40 98 0.35
41 111 0.40
42 41 0.15
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (40 bp):
AAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTAAC
Found at i:25389542 original size:82 final size:80
Alignment explanation
Indices: 25389428--25389686 Score: 231
Period size: 82 Copynumber: 3.2 Consensus size: 80
25389418 TATTGATTAG
* ** * *
25389428 TTTTAGTGGAGTTTTAACAAAAACGCCGCTATTTCTCTATTTTTAGTGGCGTTTTACATAAAAAC
1 TTTTAGTGGCGTTTGGACAAAAACGCCACTATTTCT-TATTTTTAGTGGCGTTTGACA-AAAAAC
*
25389493 GCTGCTATTTTCCCAGT
64 GCAGCTATTTTCCCAGT
* *
25389510 TTTTACTGGCGTTTGGACAAAAACGCCACTATTTCTATGCTTTTTAGTGGCGTTTGGAC--AAAA
1 TTTTAGTGGCGTTTGGACAAAAACGCCACTATTTCT-T-ATTTTTAGTGGCGTTT-GACAAAAAA
* *
25389573 CGCCA-CTA-TTTCTCTGCT
63 CG-CAGCTATTTTCCCAG-T
** ** * * *
25389591 TTTTAGTGGCGTTTTGGATGAAAACGCCACTATTGATAACTTTTAGGGGCGTTTGGGAC-AAAAA
1 TTTTAGTGGCG-TTTGGACAAAAACGCCACTATTTCTTATTTTTAGTGGCGTTT--GACAAAAAA
*
25389655 CGCAGCTATTTCCCCAGT
63 CGCAGCTATTTTCCCAGT
25389673 TTTTAGTGGCGTTT
1 TTTTAGTGGCGTTT
25389687 ACGTGAAAAC
Statistics
Matches: 145, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
80 19 0.13
81 29 0.20
82 75 0.52
83 20 0.14
84 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (80 bp):
TTTTAGTGGCGTTTGGACAAAAACGCCACTATTTCTTATTTTTAGTGGCGTTTGACAAAAAACGC
AGCTATTTTCCCAGT
Found at i:25389717 original size:81 final size:80
Alignment explanation
Indices: 25389551--25389725 Score: 196
Period size: 81 Copynumber: 2.2 Consensus size: 80
25389541 TTTCTATGCT
* * **
25389551 TTTTAGTGGCGTTTGGACAAAACGCCACTATTTCTCTGCTTTTTAGTGGCGTTTTGGATGAAAAC
1 TTTTAGTGGCGTTTGGACAAAACGCCACTATTTCCCAGCTTTTTAGTGGCGTTTACGATGAAAAC
**
25389616 GCCACTATTGATAAC
66 AACACTATTGATAAC
*
25389631 TTTTAGGGGCGTTTGGGACAAAAACG-CAGCTATTTCCCCAG-TTTTTAGTGGCGTTTACG-TGA
1 TTTTAGTGGCGTTT-GGAC-AAAACGCCA-CTATTT-CCCAGCTTTTTAGTGGCGTTTACGATGA
* *
25389693 AAACAACGCTATTGAT-CC
62 AAACAACACTATTGATAAC
25389711 GTTTTAGTGGCGTTT
1 -TTTTAGTGGCGTTT
25389726 TAGATAAAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
80 14 0.17
81 35 0.44
82 28 0.35
83 3 0.04
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (80 bp):
TTTTAGTGGCGTTTGGACAAAACGCCACTATTTCCCAGCTTTTTAGTGGCGTTTACGATGAAAAC
AACACTATTGATAAC
Found at i:25394055 original size:24 final size:24
Alignment explanation
Indices: 25394004--25394073 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
25393994 AGCTCCTTCT
* *
25394004 GAGCTGATGAATAGTAAGCT-TTATC
1 GAGCTGA-GAACAGTAAGCTCTGA-C
25394029 GAGCTG-GAAACAGTAAGCTCTGAC
1 GAGCTGAG-AACAGTAAGCTCTGAC
*
25394053 GAGCTGAGAATAGTAAGCTCT
1 GAGCTGAGAACAGTAAGCTCT
25394074 TATGAGTTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 29 0.74
25 9 0.23
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (24 bp):
GAGCTGAGAACAGTAAGCTCTGAC
Found at i:25395690 original size:19 final size:20
Alignment explanation
Indices: 25395666--25395703 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
25395656 GGTACCACCA
25395666 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
25395685 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
25395704 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:25395999 original size:46 final size:46
Alignment explanation
Indices: 25395932--25396145 Score: 242
Period size: 46 Copynumber: 4.6 Consensus size: 46
25395922 CGCCCCTAAG
25395932 TGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCATAAA
25395978 TGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCATAAA
** *
25396024 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ATAT-C-T-TA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAAA
* * * * * *
25396071 CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
25396117 TGAACTCGGACTCAACTCAACGAGTTCGG
1 TGAACTCGGACTCAACTCAACGAGTTCGG
25396146 ATGCTCAACC
Statistics
Matches: 145, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 2 0.01
45 3 0.02
46 99 0.68
47 28 0.19
48 2 0.01
49 2 0.01
50 2 0.01
51 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAA
Found at i:25396110 original size:93 final size:93
Alignment explanation
Indices: 25395979--25396149 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
25395969 ATCCATAAAT
* * *
25395979 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
25396044 CGAGTTCGGATGCCTAGTTATATCTTAC
66 CGAGTTCGGATGCCTAGTTATATCTTAC
* *
25396072 GAACTCGGACTCAACTCAACGAG-TTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTT-AGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
25396136 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
25396150 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTTAGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTATATCTTAC
Found at i:25396603 original size:30 final size:30
Alignment explanation
Indices: 25396569--25396628 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
25396559 ATTTAATATG
25396569 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
25396599 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
25396629 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:25400907 original size:26 final size:26
Alignment explanation
Indices: 25400871--25401006 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
25400861 TGATACAAAT
25400871 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
25400897 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
25400923 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
25400949 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
25400975 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
25401001 TGATAA
1 TGATAA
25401007 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:25403037 original size:137 final size:137
Alignment explanation
Indices: 25402791--25403077 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
25402781 GAGTAGTCTC
*
25402791 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTAAAATGGCCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGCCCTATGGGCCATAC
25402856 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
25402921 ACTGTTA
131 ACTGTTA
* *
25402928 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGCCCTATGGGCCATAC
*
25402993 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
25403058 ACTGTTA
131 ACTGTTA
**
25403065 CCTGAATGGGCTT
1 CCCAAATGGGCTT
25403078 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGCCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:25409635 original size:45 final size:46
Alignment explanation
Indices: 25409443--25410176 Score: 198
Period size: 45 Copynumber: 16.2 Consensus size: 46
25409433 CTAAAATTTT
* **
25409443 AGGGAAATAAGATTTGCTATCTTTAACCTGC-TCCGCTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * * *
25409488 AGGGAGATAAGACTTG---T-TTTGATCTGC-TCTACTGCAACTGC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * * * *
25409529 AGAGAGATAAGATCTGTAACTTATAGCTTCAATCT-ATTCTACTGCAACTTC
1 AGGGAGATAAGAT-T-T-GC-TAT--CTTTAACCTGCTTCTACTGCAACTTC
* * *
25409580 AGGGAAATAAGATTTGCTATCTTTAACCTGCTTC-GCTGCAACATC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * ** * *
25409625 AGGGAGATAAGACTTG---T-TTTGATTTGC-TCTAATGCAAATTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * * * *
25409666 AGAGAGATAAGATCTATAACTTATAGCTTCAATCTG-TTCCACTGCAACTTC
1 AGGGAGATAAGAT-T-T-GC-TAT--CTTTAACCTGCTTCTACTGCAACTTC
* * * * * *
25409717 AGGGAAAAAAGATTTGCTATCTTCAGCCAGC-TCCACTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * * *
25409762 AGGGAGATAAGACTTG---T-TTTGATCTGC-TCCACTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
** ** * *
25409803 AGATAGATAAGATCTGTAATTTATAGCTTTAATCTG-TTCCACTGCAACTTC
1 AGGGAGATAAGAT-T-T--GCTAT--CTTTAACCTGCTTCTACTGCAACTTC
* * * ** **
25409854 AAGGAAATAAGATTTGCTATCTCTGGCCTG-TTCCGCTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * *
25409899 AGGGAGATAAGACTTG---T-TTTGATCTGCTT-TACTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * ** * * * * *
25409940 AGAGAGGTAAGATCTGTAATTTATAGCTTCAATCTG-TTCCACTGTAACTTT
1 AGGGAGATAAGAT-T-T--GCTAT--CTTTAACCTGCTTCTACTGCAACTTC
* * * * *
25409991 AGGGAAATAAGATTTACTATCTTTAGCCTGC-TCCACTGCAGCTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* * *
25410036 AGGGAGATAAGACTTG-T-T-TTGATCC-GC-TCTACTGCAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
** * * ** *
25410077 AGAAAGAT-AGAATCATT--TGTCTTCAGTCTGCTCCT-CTGCAACTTC
1 AGGGAGATAAG-AT--TTGCTATCTTTAACCTGCTTCTACTGCAACTTC
* ** * * *
25410122 AGGGAGATAAGACTTGCGGT-TTTGACCTGC-TCCACTGTAACTTC
1 AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
*
25410166 ATGGAGATAAG
1 AGGGAGATAAG
25410177 GTTAATGATT
Statistics
Matches: 504, Mismatches: 125, Indels: 121
0.67 0.17 0.16
Matches are distributed among these distances:
40 4 0.01
41 131 0.26
42 16 0.03
43 11 0.02
44 30 0.06
45 163 0.32
46 7 0.01
47 12 0.02
48 6 0.01
49 4 0.01
50 6 0.01
51 114 0.23
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (46 bp):
AGGGAGATAAGATTTGCTATCTTTAACCTGCTTCTACTGCAACTTC
Found at i:25409653 original size:137 final size:137
Alignment explanation
Indices: 25409406--25410176 Score: 1004
Period size: 137 Copynumber: 5.7 Consensus size: 137
25409396 ATTAGGTTTT
* ** * * *
25409406 TGTAATTTATAGC-TCTAATCTATTCCACTAAAATTTTAGGGAAATAAGATTTGCTATCTTTAAC
1 TGTAATTTATAGCTTC-AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGC
*
25409470 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTGCAGAGAG
65 CTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAG
25409535 ATAAGATC
130 ATAAGATC
* * * *
25409543 TGTAACTTATAGCTTCAATCTATTCTACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAACC
1 TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * * *
25409608 TGCTTCGCTGCAACATCAGGGAGATAAGACTTGTTTTGATTTGCTCTAATGCAAATTCAGAGAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
25409673 TAAGATC
131 TAAGATC
* * * *
25409680 TATAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAAAAAGATTTGCTATCTTCAGCC
1 TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * *
25409745 AGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCCACTGCAACTTCAGATAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
25409810 TAAGATC
131 TAAGATC
* * * *
25409817 TGTAATTTATAGCTTTAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTTGCTATCTCTGGCC
1 TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * *
25409882 TGTTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTTTACTGCAACTTCAGAGAGG
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
25409947 TAAGATC
131 TAAGATC
* * *
25409954 TGTAATTTATAGCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTTACTATCTTTAGCC
1 TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
* * * *
25410019 TGCTCCACTGCAGCTTCAGGGAGATAAGACTTGTTTTGATCCGCTCTACTGCAACTTCAGAAAGA
66 TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
25410084 T-AGAATC
131 TAAG-ATC
* * * * * * **
25410091 ----ATTTGT--CTTCAGTCTGCTCCTCTGCAACTTCAGGGAGATAAGACTTGCGGT-TTT-GAC
1 TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAG-C
* * *
25410148 CTGCTCCACTGTAACTTCATGGAGATAAG
65 CTGCTCCGCTGCAACTTCAGGGAGATAAG
25410177 GTTAATGATT
Statistics
Matches: 561, Mismatches: 70, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
129 1 0.00
130 30 0.05
131 35 0.06
133 5 0.01
136 2 0.00
137 486 0.87
138 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (137 bp):
TGTAATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGCC
TGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGA
TAAGATC
Found at i:25409801 original size:86 final size:85
Alignment explanation
Indices: 25409697--25410176 Score: 270
Period size: 86 Copynumber: 5.4 Consensus size: 85
25409687 TATAGCTTCA
* * * *
25409697 ATCTGTTCCACTGCAACTTCAGGGAAAAAAGATTTGCTATCTTCAGCCAGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG-TATCTTCAGTCTGCTCCACTGCAACTTC
25409762 AGGGAGATAAGACTTGTTTTG
65 AGGGAGATAAGACTTGTTTTG
** * * * * *
25409783 ATCTGCTCCACTGCAACTTCAGATAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTGC
1 ATCTGCTCCACTGCAACTTCAGGGAAATAAGA--T-T--TGTAT--CTTCAGTCTGCTCCACTGC
* * *
25409848 AACTTCAAGGAAATAAGATTTGCTATCTCTG
59 AACTTCAGGGAGATAAGACTTG-T-T-T-TG
** * * * * * **
25409879 GCCTGTTCCGCTGCAACTTCAGGGAGATAAGACTTGT-T-TTGA-TCTGCTTTACTGCAACTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAGTCTGCTCCACTGCAACTTCA
* * *
25409941 GAGAGGTAAGATCTGTAATTTATAG
66 GGGAGATAAGA-CT-T-GTTT-T-G
* * * * * *
25409966 CTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTTACTATCTTTAGCCTGCTCCACTGCA
1 -----ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTT-GTATCTTCAGTCTGCTCCACTGCA
*
25410031 GCTTCAGGGAGATAAGACTTGTTTTG
60 ACTTCAGGGAGATAAGACTTGTTTTG
* * * * *
25410057 ATCCGCTCTACTGCAACTTCA--GAAAGATAGAATCATT-TGTCTTCAGTCTGCTCCTCTGCAAC
1 ATCTGCTCCACTGCAACTTCAGGGAAATA-AG-AT--TTGTATCTTCAGTCTGCTCCACTGCAAC
25410119 TTCAGGGAGATAAGACTTGCGGTTTTG
62 TTCAGGGAGATAAGACTT---GTTTTG
* * * *
25410146 ACCTGCTCCACTGTAACTTCATGGAGATAAG
1 ATCTGCTCCACTGCAACTTCAGGGAAATAAG
25410177 GTTAATGATT
Statistics
Matches: 295, Mismatches: 66, Indels: 62
0.70 0.16 0.15
Matches are distributed among these distances:
84 5 0.02
85 2 0.01
86 109 0.37
87 6 0.02
88 5 0.02
89 24 0.08
90 6 0.02
91 8 0.03
92 62 0.21
93 6 0.02
94 3 0.01
95 6 0.02
96 53 0.18
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (85 bp):
ATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTATCTTCAGTCTGCTCCACTGCAACTTCA
GGGAGATAAGACTTGTTTTG
Found at i:25422328 original size:2 final size:2
Alignment explanation
Indices: 25422321--25422351 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25422311 TTAAGATGAA
25422321 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25422352 CAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25422571 original size:32 final size:33
Alignment explanation
Indices: 25422535--25422600 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
25422525 TACATATTAA
* *
25422535 AGGAATAAATAAAGGAA-AAAAGAATTAGAATC
1 AGGAATAAATAAAGAAATAAAAAAATTAGAATC
*
25422567 AGGAATAAATAAAGAAATAAAAAAATTATAATC
1 AGGAATAAATAAAGAAATAAAAAAATTAGAATC
25422600 A
1 A
25422601 AACTGATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.65, C:0.03, G:0.14, T:0.18
Consensus pattern (33 bp):
AGGAATAAATAAAGAAATAAAAAAATTAGAATC
Found at i:25428922 original size:31 final size:31
Alignment explanation
Indices: 25428884--25428962 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
25428874 TTTAACGGTT
25428884 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25428915 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
25428946 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
25428963 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:25429033 original size:42 final size:42
Alignment explanation
Indices: 25428986--25429077 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
25428976 TGGCCCATAG
* ** *
25428986 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
25429028 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
25429070 GCTCATTT
1 GCCCATTT
25429078 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:25429294 original size:26 final size:26
Alignment explanation
Indices: 25429210--25429345 Score: 192
Period size: 26 Copynumber: 5.3 Consensus size: 26
25429200 CTGGAGGCCT
25429210 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
25429234 AGCCCTTTT-AGGTAAACTGGGGCA-A
1 AGCCCTTTTCA-ATAAACTGGGGCATA
25429259 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
25429285 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25429311 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25429337 AGCCCTTTT
1 AGCCCTTTT
25429346 GCATTTCCTC
Statistics
Matches: 102, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
23 6 0.06
24 5 0.05
25 32 0.31
26 59 0.58
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:25429333 original size:52 final size:51
Alignment explanation
Indices: 25429210--25429345 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
25429200 CTGGAGGCCT
25429210 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTAGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTAGGTAAACTGGGGCAA
*
25429259 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTAGGTAAACTGGGGCA-A
25429311 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
25429346 GCATTTCCTC
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 24 0.29
52 36 0.44
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTAGGTAAACTGGGGCAA
Found at i:25430183 original size:27 final size:27
Alignment explanation
Indices: 25430148--25430224 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
25430138 GGGCATATTC
* *
25430148 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
25430175 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
25430202 GTCCCTTTACCCTACAGGGGCTT
1 GTCACTTTACCCTACAGGGGCTT
25430225 GACAGTATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:25430239 original size:27 final size:27
Alignment explanation
Indices: 25430179--25430231 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
25430169 ATTACGGTCA
* * *
25430179 CTTTACCCTACAGGGGCTTTACGGTCC
1 CTTTACCCTACAGGGGCTTGACAGTAC
25430206 CTTTACCCTACAGGGGCTTGACAGTA
1 CTTTACCCTACAGGGGCTTGACAGTA
25430232 TTTTTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (27 bp):
CTTTACCCTACAGGGGCTTGACAGTAC
Found at i:25430323 original size:27 final size:27
Alignment explanation
Indices: 25430290--25430563 Score: 182
Period size: 27 Copynumber: 10.1 Consensus size: 27
25430280 TTGGTAAATC
25430290 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * *
25430317 TGTAAACTAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * *
25430345 TAGAAAGTCAAGGGTATTTCTA-TAACTT
1 TACAAA-CCAAGGGTATTTC-AGTAATTT
** * * *
25430373 TGTAAATCAGGGGTACTTT-GGTAATTT
1 TACAAACCAAGGGTA-TTTCAGTAATTT
***
25430400 TACAAATTGAGGGTATTTC-GATAATTT
1 TACAAACCAAGGGTATTTCAG-TAATTT
* **
25430427 CACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
25430454 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
25430481 TACAAGTCGAA-GGTATTTCAGTAATTT
1 TACAA-ACCAAGGGTATTTCAGTAATTT
* * *
25430508 TACAAATCGAGGGTATTTCAGTATTTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*
25430535 TACAAACTAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
25430562 TA
1 TA
25430564 GTAAACTAAA
Statistics
Matches: 194, Mismatches: 41, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
26 7 0.04
27 151 0.78
28 21 0.11
29 15 0.08
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:25430478 original size:81 final size:81
Alignment explanation
Indices: 25430381--25430563 Score: 226
Period size: 81 Copynumber: 2.3 Consensus size: 81
25430371 TTTGTAAATC
* * *
25430381 AGGGGTACTTTGGTAATTTTACAAATTGAGGGTATTTC-GATAATTTCACAAA-CCAGTGGTATT
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAG-TAATTTCACAAATCCAG-GGTATT
**
25430444 TTGGTAATTTTACAAACT
64 TCAGTAATTTTACAAACT
* * *
25430462 AGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTC
*
25430527 AGTATTTTTACAAACT
66 AGTAATTTTACAAACT
* **
25430543 AAGGGTATTTCAGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
25430564 GTAAACTAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
81 84 0.95
82 4 0.05
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAATCCAGGGTATTTC
AGTAATTTTACAAACT
Found at i:25430578 original size:81 final size:80
Alignment explanation
Indices: 25430290--25430578 Score: 205
Period size: 81 Copynumber: 3.5 Consensus size: 80
25430280 TTGGTAAATC
* ** *
25430290 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTA-TAATTTTTAGAAAGTC
1 TACAAACTAAGGGTATTTCAGTAATTTTACAAACTAA-GGTATTTC-AGTAA-TTTTACAAA-TC
*
25430354 AAGGGTATTTCTA-TAACTTTG
62 AAGGGTATTTC-AGT-A-TTTT
* * * * * * *
25430375 TA-AATC-AGGGGTACTTT-GGTAATTTTACAAATTGAGGGTATTTC-GATAATTTCACAAA-CC
1 TACAAACTAAGGGTA-TTTCAGTAATTTTACAAACT-AAGGTATTTCAG-TAATTTTACAAATCA
** *
25430435 AGTGGTATTTTGGTAATTT
63 AG-GGTATTTCAGTATTTT
* ** * * *
25430454 TACAAACTAGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAG
1 TACAAACTAAGGGTATTTCAGTAATTTTACAA-ACTAAGGTATTTCAGTAATTTTACAAATCAAG
25430519 GGTATTTCAGTATTTT
65 GGTATTTCAGTATTTT
* *
25430535 TACAAACTAAGGGTATTTCAGTAATTTTAGTAAACTAAAGTATT
1 TACAAACTAAGGGTATTTCAGTAATTTTA-CAAACTAAGGTATT
25430579 CTAAACAGGG
Statistics
Matches: 160, Mismatches: 31, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
79 4 0.03
80 10 0.06
81 95 0.59
82 13 0.08
83 29 0.18
84 7 0.04
85 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (80 bp):
TACAAACTAAGGGTATTTCAGTAATTTTACAAACTAAGGTATTTCAGTAATTTTACAAATCAAGG
GTATTTCAGTATTTT
Found at i:25432824 original size:31 final size:31
Alignment explanation
Indices: 25432786--25432864 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
25432776 TTTAACGGTT
25432786 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25432817 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
25432848 ACTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
25432865 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:25432935 original size:42 final size:42
Alignment explanation
Indices: 25432888--25432979 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
25432878 TGGCCCATAG
* ** *
25432888 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
25432930 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
25432972 GCCCATTT
1 GCCCATTT
25432980 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:25433196 original size:26 final size:26
Alignment explanation
Indices: 25433112--25433273 Score: 251
Period size: 26 Copynumber: 6.3 Consensus size: 26
25433102 CTGGAGGCCT
25433112 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
25433136 AGCCCTTTTCGGTAAACTAGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
25433161 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
25433187 AGCCCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25433213 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25433239 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
25433265 AGCCCTTTT
1 AGCCCTTTT
25433274 GCATTTCCTC
Statistics
Matches: 127, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 5 0.04
24 5 0.04
25 31 0.24
26 86 0.68
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:25434097 original size:27 final size:27
Alignment explanation
Indices: 25434062--25434141 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
25434052 GGGCATATTC
* *
25434062 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
25434089 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
25434116 GTCCCTTTACCCTACAGGGGCTTTAC
1 GTCACTTTACCCTACAGGGGCTTTAC
25434142 AGTATTTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:25434237 original size:27 final size:27
Alignment explanation
Indices: 25434204--25434477 Score: 196
Period size: 27 Copynumber: 10.1 Consensus size: 27
25434194 TTGGTAAATC
25434204 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
25434231 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
25434259 TAGAAAGTCAAGGGTATTTCTGTAACTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * * **
25434287 TGTAAATCAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
25434314 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* **
25434341 CACAAACC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
25434368 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
25434395 TACAAGTCGAA-GGTATTTCAGTAATTT
1 TACAA-ACCAAGGGTATTTCAGTAATTT
* *
25434422 TACAAATCGAA-GGTATTTCAGTATTTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
* *
25434449 TATAAACTAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
25434476 TA
1 TA
25434478 GTAAACTAAA
Statistics
Matches: 200, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.03
27 164 0.82
28 17 0.09
29 14 0.07
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:25434390 original size:81 final size:81
Alignment explanation
Indices: 25434295--25434477 Score: 224
Period size: 81 Copynumber: 2.3 Consensus size: 81
25434285 TTTGTAAATC
* * * *
25434295 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAACCGA-AGGTATTT
**
25434359 TGGTAATTTTACAAACT
65 CAGTAATTTTACAAACT
* * *
25434376 AGGGGTATTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAAGGTATTTC
1 AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAACCGAAGGTATTTC
* *
25434441 AGTATTTTTATAAACT
66 AGTAATTTTACAAACT
* **
25434457 AAGGGTATTTCAGTAATTTTA
1 AGGGGTATTTTGGTAATTTTA
25434478 GTAAACTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 86 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTCACAAACCGAAGGTATTTC
AGTAATTTTACAAACT
Found at i:25436374 original size:25 final size:25
Alignment explanation
Indices: 25436338--25436439 Score: 63
Period size: 24 Copynumber: 4.2 Consensus size: 25
25436328 CATCGTATTC
* * *
25436338 GCTCTTTCGAGCT-ATGATCGGTAA
1 GCTCCTTCGAGCTGATGAACAGTAA
25436362 GCTCCTTCTGAGCTGATGAACAGTAA
1 GCTCCTTC-GAGCTGATGAACAGTAA
* *
25436388 GCT-TTATCAAGCT-A-GAAACAGTAA
1 GCTCCT-TCGAGCTGATG-AACAGTAA
* *
25436412 GCT-CTGACGAGCTGA-GAATAGTAA
1 GCTCCT-TCGAGCTGATGAACAGTAA
25436436 GCTC
1 GCTC
25436440 TTATGAGTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
23 1 0.02
24 35 0.56
25 12 0.19
26 14 0.23
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GCTCCTTCGAGCTGATGAACAGTAA
Found at i:25436424 original size:24 final size:25
Alignment explanation
Indices: 25436372--25436440 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
25436362 GCTCCTTCTG
*
25436372 AGCTGATGAACAGTAAGCT-TTATCA
1 AGCTGA-GAACAGTAAGCTCTGATCA
*
25436397 AGCT-AGAAACAGTAAGCTCTGA-CG
1 AGCTGAG-AACAGTAAGCTCTGATCA
*
25436421 AGCTGAGAATAGTAAGCTCT
1 AGCTGAGAACAGTAAGCTCT
25436441 TATGAGTTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.03
24 29 0.76
25 8 0.21
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
AGCTGAGAACAGTAAGCTCTGATCA
Found at i:25450630 original size:16 final size:17
Alignment explanation
Indices: 25450599--25450631 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
25450589 ATTACAAAAT
25450599 CAAATATTCTAAGATTA
1 CAAATATTCTAAGATTA
*
25450616 CAAATA-TCTAGGATTA
1 CAAATATTCTAAGATTA
25450632 ATTTGCTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAATATTCTAAGATTA
Found at i:25452748 original size:14 final size:14
Alignment explanation
Indices: 25452729--25452758 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25452719 AGATAATTAT
25452729 TAAATTTAATTTAA
1 TAAATTTAATTTAA
25452743 TAAATTTAATTTAA
1 TAAATTTAATTTAA
25452757 TA
1 TA
25452759 TTAAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAATTTAATTTAA
Found at i:25473766 original size:5 final size:5
Alignment explanation
Indices: 25473758--25473791 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
25473748 GATAGATATA
* *
25473758 TTTTA TTTTA TTTTG TTTTG TTTTG TTTTG TTTT
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTT
25473792 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (5 bp):
TTTTG
Found at i:25476360 original size:107 final size:109
Alignment explanation
Indices: 25476171--25476391 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 109
25476161 AATTAATTTT
25476171 AAAATTAATATTTAGAAATTTTTATTTTTTAATATTTACTAATGTGGCATTTTATCATGTTAGCA
1 AAAATTAATATTTAGAAA-TTTTATTTTTTAATATTTACTAATGTGGCATTTTATCATGTTAGCA
25476236 TGATGTAGATATAGTCACCGTTTAATTGATCTGTCAATCACGTCA
65 TGATGTAGATATAGTCACCGTTTAATTGATCTGTCAATCACGTCA
*
25476281 AAAATTAATTTTTAGAAA-TTT-TTTTTTAATATTTACTAATGTGGCATTTTATCATGTTAGCAT
1 AAAATTAATATTTAGAAATTTTATTTTTTAATATTTACTAATGTGGCATTTTATCATGTTAGCAT
25476344 GATGTAGATATAGTCACCGTTTAATTGATCTGTCAATCACGTCA
66 GATGTAGATATAGTCACCGTTTAATTGATCTGTCAATCACGTCA
25476388 AAAA
1 AAAA
25476392 AATTTAATGA
Statistics
Matches: 110, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
107 90 0.82
108 3 0.03
110 17 0.15
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (109 bp):
AAAATTAATATTTAGAAATTTTATTTTTTAATATTTACTAATGTGGCATTTTATCATGTTAGCAT
GATGTAGATATAGTCACCGTTTAATTGATCTGTCAATCACGTCA
Found at i:25476776 original size:1 final size:1
Alignment explanation
Indices: 25476770--25476796 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
25476760 CTTACAGAGC
25476770 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
25476797 CAGCGCGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:25478979 original size:2 final size:2
Alignment explanation
Indices: 25478972--25478998 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25478962 TCTCTTTTGT
25478972 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
25478999 AGTTGTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:25492733 original size:6 final size:6
Alignment explanation
Indices: 25492722--25492757 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
25492712 CTGTGTTTCT
25492722 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC
25492758 AACTGAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (6 bp):
TCTTCC
Found at i:25495401 original size:22 final size:18
Alignment explanation
Indices: 25495361--25495397 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25495351 AAAAATTTAA
25495361 ATAGCGCATTCAAAAACT
1 ATAGCGCATTCAAAAACT
25495379 ATAGCGCATTCAAAAACT
1 ATAGCGCATTCAAAAACT
25495397 A
1 A
25495398 ACTAGGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ATAGCGCATTCAAAAACT
Found at i:25497015 original size:38 final size:38
Alignment explanation
Indices: 25496970--25497044 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
25496960 TAGAAGTAGT
25496970 TCAGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTAC
1 TCAGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTAC
25497008 TCAGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTA
1 TCAGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTA
25497045 TCATACATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.04, G:0.32, T:0.24
Consensus pattern (38 bp):
TCAGAAAGGAGTGGATGATGTTGAAAGTAAATAGGTAC
Found at i:25503125 original size:93 final size:93
Alignment explanation
Indices: 25503013--25503183 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
25503003 GCCCCTAAGT
* *
25503013 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25503078 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
25503106 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25503171 CGAGTTCGGATGC
66 CGAGTTCGGATGC
25503184 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25503180 original size:46 final size:46
Alignment explanation
Indices: 25503008--25503180 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
25502998 AACCCGCCCC
* * *
25503008 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
25503054 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25503102 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25503147 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25503181 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25507765 original size:18 final size:18
Alignment explanation
Indices: 25507700--25507785 Score: 84
Period size: 18 Copynumber: 4.8 Consensus size: 18
25507690 TTAGTAACAT
25507700 TCAATTATTCAGTAGCAA
1 TCAATTATTCAGTAGCAA
***
25507718 TTTGTTATTCAGTAGCAA
1 TCAATTATTCAGTAGCAA
* *
25507736 TCATTTGCTT-AGTAGCAA
1 TCAATT-ATTCAGTAGCAA
* * *
25507754 TCAATTATTTAGTAACGA
1 TCAATTATTCAGTAGCAA
25507772 TCAATTATTCAGTA
1 TCAATTATTCAGTA
25507786 ACATTCAGTC
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.04
18 50 0.93
19 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (18 bp):
TCAATTATTCAGTAGCAA
Found at i:25509023 original size:14 final size:15
Alignment explanation
Indices: 25508994--25509039 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
25508984 ACTTTATTTG
25508994 ATTAATATAAAATAAT
1 ATTAATAT-AAATAAT
25509010 ATTAATAT-AATAAT
1 ATTAATATAAATAAT
*
25509024 ATTTACT-TAAATAAT
1 A-TTAATATAAATAAT
25509039 A
1 A
25509040 AGTAAATACA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAATATAAATAAT
Found at i:25516538 original size:47 final size:47
Alignment explanation
Indices: 25516468--25516710 Score: 317
Period size: 47 Copynumber: 5.1 Consensus size: 47
25516458 CTTCGGGACT
* * * * * * *
25516468 TATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
25516515 TATCACATATATACACTTTCACATTCATCACATTGGCCATTAGG-CC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
25516561 TCATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCT
1 T-ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
25516611 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
25516658 TATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
25516707 TATC
1 TATC
25516711 GGCCATTAGG
Statistics
Matches: 179, Mismatches: 11, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
46 3 0.02
47 89 0.50
49 85 0.47
50 2 0.01
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:25516631 original size:96 final size:96
Alignment explanation
Indices: 25516469--25516710 Score: 382
Period size: 96 Copynumber: 2.5 Consensus size: 96
25516459 TTCGGGACTT
* * * * * *
25516469 ATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 ATCACATATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
25516531 TTTCACATTCATCACATTGGCCATTAGGCCTC
65 TTTCACATTCATCACATCGGCCATTAGGCCTC
25516563 ATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
*
25516628 TTCACATTCATCACATCGGCCATTAGGCCTT
66 TTCACATTCATCACATCGGCCATTAGGCCTC
25516659 ATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 ATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATC
25516711 GGCCATTAGG
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
94 7 0.05
95 1 0.01
96 126 0.92
97 3 0.02
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (96 bp):
ATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:25516707 original size:49 final size:49
Alignment explanation
Indices: 25516466--25516710 Score: 342
Period size: 49 Copynumber: 5.1 Consensus size: 49
25516456 CCCTTCGGGA
* * * * *
25516466 CTTATCACAT-T-TATACA-CTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACCTT-CACATTCATCACATCGGCCATTAGGC
* * *
25516513 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
*
25516560 CTCATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
*
25516609 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
25516656 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
25516705 CTTATC
1 CTTATC
25516711 GGCCATTAGG
Statistics
Matches: 178, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
46 1 0.01
47 87 0.49
48 2 0.01
49 88 0.49
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:25516713 original size:17 final size:17
Alignment explanation
Indices: 25516691--25516727 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
25516681 CATTCATCAC
25516691 ATCGGCCATTAGGCCTT
1 ATCGGCCATTAGGCCTT
25516708 ATCGGCCATTAGGCCTT
1 ATCGGCCATTAGGCCTT
25516725 ATC
1 ATC
25516728 ACATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (17 bp):
ATCGGCCATTAGGCCTT
Found at i:25516716 original size:66 final size:66
Alignment explanation
Indices: 25516642--25516776 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
25516632 CATTCATCAC
*
25516642 ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCT
1 ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATAGGCCATTAGGCCT
25516707 T
66 T
25516708 ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATAGGCCATTAGGCCT
1 ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATAGGCCATTAGGCCT
25516773 T
66 T
25516774 ATC
1 ATC
25516777 ACGTATATAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (66 bp):
ATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACATAGGCCATTAGGCCT
T
Found at i:25519728 original size:13 final size:13
Alignment explanation
Indices: 25519710--25519748 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
25519700 ATATAAGAAT
25519710 TATTATTATATTA
1 TATTATTATATTA
*
25519723 TATTATTATAATA
1 TATTATTATATTA
25519736 TATATATATATAT
1 TAT-TAT-TATAT
25519749 AGTAAAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 15 0.68
14 3 0.14
15 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATTATATTA
Done.